vcf_extract_pops

extract vcfR format data by group

Usage

vcf_extract_pops(vcf, ind_pop, keep_pop, whitelist = TRUE, f_invar = TRUE)

Arguments

vcf

-> vcfR object

ind_pop

-> group assignment of individuals in vcf (factor)

keep_pop

-> group(s) of interest to include/exclude in vcf infile (factor)

Value

extracted vcfR object

Details

This function extracts the vcfR object by group(s) (individuals assigned to one or more group), returning new vcfR object

Author

Tomas Hrbek December 2020

Examples

vcf_extract_pops(vcf = my_vcf, ind_pop = ind_pop, keep_pop = keepers, whitelist = TRUE)
#> Error: object 'ind_pop' not found
vcf_extract_pops(vcf = my_vcf, ind_pop = ind_pop, keep_pop = non_keepers, whitelist = FALSE)
#> Error: object 'ind_pop' not found
vcf_extract_pops(my_vcf, ind_pop, keepers)
#> Error: object 'ind_pop' not found